MetaXcan output does not have pred_perf_r2

[quynhle1204]

Hi,

I want to use GIGSEA to perform Gene Set Enrichment Analysis based on MetaXcan results. I read that you used prediction R^2 to build the weighted linear regression model. However, I ran MetaXcan using the MASHR model, which did not have pred_perf_r2 values. Is it fine if I only use weights as the fraction of imputation-used SNPs? Also, is it necessary to adjust the empirical p-values when interpreting results?

Thanks,
Quynh